Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
KDM5A

Cell type

Cell type Class
Blood
Cell type
MM.1S
Primary Tissue
Blood
Tissue Diagnosis
Multiple Myeloma

Attributes by original data submitter

Sample

source_name
multiple myeloma cell line
cell line
MM.1S
cell type
multiple myeloma cell line
treatment
Not applicable.
chip antibody
KDM5A (Bethyl Laboratories, A300-897A, lot3)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
MM.1S cells were crosslinked, lysed and sonicated. For ChIP with reference exogenous genome, spike-in chromatin (Active Motif, 53083) was then added. The protein-bound DNA fragments were then immunoprecipitated with specific antibodies. After reverse-crosslinking, DNA was purified using QIAquick PCR Purification Kit (Qiagen). Libraries were prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs) according to the manufacturer's instructions.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
22063157
Reads aligned (%)
96.5
Duplicates removed (%)
5.1
Number of peaks
16579 (qval < 1E-05)

hg19

Number of total reads
22063157
Reads aligned (%)
95.8
Duplicates removed (%)
5.6
Number of peaks
16495 (qval < 1E-05)

Base call quality data from DBCLS SRA